METHOD about: | ../../../doc/explain_methods.html#PX_about_phd |
METHOD url: | PHD |
TYPE : | sec |
NPROT : | 1599 |
NWEEKS : | 109 |
NOTE 1 : | here ALL results obtained for PHD in month 2001_11 are given, i.e. NOT those for a common subset! |
NOTE 2 : | all proteins evaluated had no SIGNIFICANT sequence identity to any protein of previously known structure! |
type | date | sots | id | Q3 | Q3H%o | Q3H%p | Q3E%o | Q3E%p | Q3L%o | Q3L%p | sov | sovH | sovE | sovL | BAD | info | infoO | infoP | corrH | corrE | corrL | class | contDH | contDE |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
sec | 2001_11 | dssp | ALL_proteins:psum | 70.9 | 74 | 76 | 60 | 63 | 72 | 69 | 66.9 | 66.2 | 65.3 | 63.5 | 4.2 | 0.28 | 0.28 | 0.28 | 0.61 | 0.52 | 0.48 | 7542.2 | 7.8 | 6.1 |
sec | 2001_11 | dssp | ALL_proteins:sig | 10.8 | 31 | 31 | 30 | 32 | 14 | 12 | 14.2 | 27.8 | 26.4 | 14.8 | 5.1 | 0.24 | 0.27 | 0.22 | 0.25 | 0.26 | 0.15 | 7469.2 | 8.9 | 6.8 |
sec | 2001_11 | dssp | ALL_proteins:errsig | 0.27 | 0.79 | 0.79 | 0.76 | 0.82 | 0.35 | 0.31 | 0.35 | 0.69 | 0.66 | 0.37 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 186.7 | 0.22 | 0.17 |
sec | 2001_11 | dssp | THIS_month:psum | 76.9 | 63 | 60 | 31 | 34 | 70 | 78 | 72.9 | 81.5 | 75.3 | 65.5 | 2.4 | 0.33 | 0.34 | 0.32 | 0.64 | 0.71 | 0.52 | 85.7 | 9.5 | 4.0 |
sec | 2001_11 | dssp | 1ea6:A | 84.7 | 95 | 67 | 100 | 91 | 70 | 96 | 86.9 | 85 | 100 | 80 | 0.0 | 0.64 | 0.66 | 0.63 | 0.72 | 0.94 | 0.71 | 0.0 | 10.0 | 2.0 |
sec | 2001_11 | dssp | 1ea6:B | 82.4 | 85 | 77 | 86 | 95 | 76 | 78 | 79.9 | 70 | 100 | 74 | 0.0 | 0.54 | 0.54 | 0.54 | 0.71 | 0.87 | 0.63 | 100.0 | 3.0 | 2.0 |
sec | 2001_11 | dssp | 1go9:A | 82.9 | 82 | 96 | 0 | 0 | 85 | 50 | 72.6 | 75 | 100 | 60 | 0.0 | 0.28 | 0.32 | 0.24 | 0.56 | 1.0 | 0.56 | 100.0 | 12.0 | 0.00 |
sec | 2001_11 | dssp | 1goe:A | 82.9 | 82 | 96 | 0 | 0 | 85 | 50 | 72.6 | 75 | 100 | 60 | 0.0 | 0.28 | 0.32 | 0.24 | 0.56 | 1.0 | 0.56 | 100.0 | 12.0 | 0.00 |
sec | 2001_11 | dssp | 1hdl:A | 76.4 | 93 | 75 | 50 | 50 | 52 | 84 | 72.7 | 81 | 25 | 63 | 1.8 | 0.27 | 0.26 | 0.30 | 0.55 | 0.48 | 0.53 | 100.0 | 14.0 | 0.00 |
sec | 2001_11 | dssp | 1hek:A | 72.4 | 88 | 80 | 0 | 0 | 52 | 80 | 76.9 | 95 | 100 | 58 | 0.0 | 0.30 | 0.34 | 0.27 | 0.63 | 1.0 | 0.45 | 0.0 | 6.0 | 9.0 |
sec | 2001_11 | dssp | 1i26:A | 82.4 | 0 | 0 | 16 | 50 | 96 | 84 | 49.5 | 100 | 22 | 55 | 0.0 | 0.05 | 0.04 | 0.08 | 1.0 | 0.21 | 0.21 | 100.0 | 0.00 | 11.0 |
sec | 2001_11 | dssp | 1jo6:A | 60.0 | 37 | 75 | 0 | 0 | 64 | 82 | 47.3 | 55 | 100 | 46 | 0.0 | 0.20 | 0.26 | 0.14 | 0.46 | 1.0 | 0.01 | 100.0 | 8.0 | 26.0 |
sec | 2001_11 | dssp | 1jrj:A | 79.5 | 75 | 94 | 0 | 0 | 86 | 68 | 86.4 | 87 | 100 | 84 | 0.0 | 0.36 | 0.39 | 0.33 | 0.66 | 1.0 | 0.60 | 100.0 | 12.0 | 2.0 |
sec | 2001_11 | dssp | 1jyo:E | 56.9 | 80 | 56 | 8 | 11 | 39 | 78 | 47.7 | 55 | 8 | 46 | 16.6 | 0.11 | 0.10 | 0.12 | 0.18 | -0.00 | 0.41 | 100.0 | 21.0 | 2.0 |
sec | 2001_11 | dssp | 1jyo:F | 52.9 | 78 | 53 | 0 | 0 | 36 | 80 | 46.2 | 64 | 0 | 35 | 16.3 | 0.12 | 0.11 | 0.13 | 0.16 | -0.11 | 0.37 | 100.0 | 22.0 | 0.00 |
sec | 2001_11 | dssp | 1k5j:B | 90.9 | 0 | 0 | 90 | 94 | 92 | 85 | 98.5 | 100 | 100 | 96 | 0.0 | 0.55 | 0.56 | 0.55 | 1.0 | 0.81 | 0.81 | 100.0 | 0.00 | 3.0 |
sec | 2001_11 | dssp | 1k5j:C | 87.9 | 0 | 0 | 89 | 89 | 85 | 85 | 95.5 | 100 | 100 | 89 | 0.0 | 0.46 | 0.46 | 0.46 | 1.0 | 0.75 | 0.75 | 100.0 | 0.00 | 0.00 |
sec | 2001_11 | dssp | 1k99:A | 85.7 | 100 | 79 | 0 | 0 | 67 | 100 | 87.9 | 100 | 100 | 72 | 0.0 | 0.51 | 0.48 | 0.54 | 0.73 | 1.0 | 0.73 | 100.0 | 14.0 | 0.00 |
sec | 2001_11 | dssp | THIS_month:psum | 76.9 | 63 | 60 | 31 | 34 | 70 | 78 | 72.9 | 81.5 | 75.3 | 65.5 | 2.4 | 0.33 | 0.34 | 0.32 | 0.64 | 0.71 | 0.52 | 85.7 | 9.5 | 4.0 |
sec | 2001_11 | dssp | ALL_proteins:psum | 70.9 | 74 | 76 | 60 | 63 | 72 | 69 | 66.9 | 66.2 | 65.3 | 63.5 | 4.2 | 0.28 | 0.28 | 0.28 | 0.61 | 0.52 | 0.48 | 7542.2 | 7.8 | 6.1 |
sec | 2001_11 | dssp | ALL_proteins:sig | 10.8 | 31 | 31 | 30 | 32 | 14 | 12 | 14.2 | 27.8 | 26.4 | 14.8 | 5.1 | 0.24 | 0.27 | 0.22 | 0.25 | 0.26 | 0.15 | 7469.2 | 8.9 | 6.8 |
sec | 2001_11 | dssp | ALL_proteins:errsig | 0.27 | 0.79 | 0.79 | 0.76 | 0.82 | 0.35 | 0.31 | 0.35 | 0.69 | 0.66 | 0.37 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 186.7 | 0.22 | 0.17 |
psum | percentage over all proteins |
sig | standard deviation |
errsig | significant difference (to distinguish between two methods) |
type | prediction type |
date | date when added [yyyy_mm_dd] |
sots | standard of truth |
id | identifier of protein |
Q3 | three-state per-residue accuracy (percentage of correctly predicted residues) |
Q3H%o | correctly predicted helix residues (percentage of helix observed) |
Q3H%p | correctly predicted helix residues (percentage of helix predicted) |
Q3E%o | correctly predicted strand residues (percentage of helix observed) |
Q3E%p | correctly predicted strand residues (percentage of helix predicted) |
Q3L%o | correctly predicted loop residues (percentage of helix observed) |
Q3L%p | correctly predicted loop residues (percentage of helix predicted) |
sov | per segment accuracy (three states) |
sovH | per segment accuracy for helix residues |
sovE | per segment accuracy for strand residues |
sovL | per segment accuracy for non-regular residues |
BAD | percentage of confused HELIX/STRAND residues (helix predicted as strand, strand predicted as helix) |
infoO | information index accuracy (percentage of observed) |
infoP | information index accuracy (percentage of predicted) |
corrH | Matthews correlation index for helix |
corrE | Matthews correlation index for strand |
corrL | Matthews correlation index for loop |
var | variance over all proteins (1/N-1)*( score(i) - |
sig | sigma (standard deviation) over all proteins (sqrt[var]) |
errsig | significant differences ( standard dev / sqrt(Nprot) ) |